calculateViterbi: Calculate the Viterbi sequence

In bahlolab/isoRelate: Identity-by-Descent Inference of Haploid Recombining Organisms

Description

Calculate the Viterbi sequence

Usage

calculateViterbi(number_states, initial_prob, meiosis, number_snps, genotypes,
  pop_allele_freqs, positions_cM, error, gender_1, gender_2)

Arguments

number_states	Integer. The number of IBD states in the model
initial_prob	A numeric vector containing the initial state probabilities
meiosis	Integer. The number of meiosis separating the two isolates
number_snps	Integer. The number of SNPs
genotypes	A integer martix containing the genotype calls for a pair of isolates
pop_allele_freqs	A numeric vector of population allele frequencies
positions_cM	A numeric vector of SNP genetic map positions in cM
error	Numeric. The genotype error rate
gender_1	Integer. The MOI estimate of isolate 1
gender_2	Integer. The MOI estimate of isolate 2

bahlolab/isoRelate documentation built on May 11, 2019, 5:25 p.m.